Rh5AG124000

Nuclear transcription factor Y subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0008331
Physical Location & Seq
Reverse (-)
11552635 .. 11558984
6350 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG124000.1

Sequence Viewer

Length: 543 bp
ATGATTTCTTCCTCACCTGCACCTGGAATGTCTAATCCTGGAATTCCAGGCCCTATGCAGTATGTAGCCCCTCCACAGATTGGAGCAGGACATGCAGTGGCGCCAGGAGCCTACCCATATCCGGACCCTTACTACAGAAGCATCTTTGCTCCTTATGACACACAACCATATCCTCCACAACCCTATGGGGGGCAACCAACGGTCCATCTTCAGTTAATGGGAATTCAGCAAGCAGGAGTTCCATTGCCAACAGATGCAGTTGAGGAACCTGTGTTTGTAAATGCAAAACAATATCATGGCATCTTGCGACGTCGGCAGTCTCGTGCTAAAGCAGAATCTGAAAACAAAGCTCTAAAATCTCGGAAGCCTTACTTGCATGAATCTCGACACCTGCATGCACTGAGAAGAGCTAGAGGATGTGGGGGTCGGTTTCTTAATGCAAAGAAAGATGAGAATGAACAGAGTGAAGGAGACAATTCACAGGCAATTATCAACTTGAACTCTGATAAAAGTGAGCGTTCTTCCTCGGATAGAACATCCTAA

Protein Analysis

180

Amino Acids

19.73

Weight (kDa)

9.35

Isoelectric Point (pI)

74.76

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CBFB_NFYA PF02045 89 - 144 5.5e-27 CCAAT-binding transcription factor (CBF-B/NF-YA) subunit B
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 2 cut(s) 25, 399
AatII GACGTC 1 cut(s) 313
Acc36I ACCTGC 2 cut(s) 25, 399
AccB1I GGYRCC 1 cut(s) 100
AccB7I CCANNNNNTGG 1 cut(s) 80
AccIII TCCGGA 1 cut(s) 121
AcsI RAATTY 2 cut(s) 42, 222
AcuI CTGAAG 1 cut(s) 194
AcyI GRCGYC 2 cut(s) 101, 310
AfiI CCNNNNNNNGG 5 cut(s) 23, 80, 121, 188, 189
AgsI TTSAA 1 cut(s) 499
AjnI CCWGG 4 cut(s) 22, 37, 46, 103
AluBI AGCT 2 cut(s) 350, 410
AluI AGCT 2 cut(s) 350, 410
Alw26I GTCTC 2 cut(s) 324, 465
AlwNI CAGNNNCTG 1 cut(s) 338
Aor13HI TCCGGA 1 cut(s) 121
AoxI GGCC 1 cut(s) 49
ApoI RAATTY 2 cut(s) 42, 222
AspLEI GCGC 1 cut(s) 103
AspS9I GGNCC 3 cut(s) 50, 124, 202
AsuHPI GGTGA 1 cut(s) 6
AvaII GGWCC 2 cut(s) 124, 202
BanI GGYRCC 1 cut(s) 100
BauI CACGAG 1 cut(s) 321
BccI CCATC 1 cut(s) 213
BcgI CGANNNNNNTGC 2 cut(s) 365, 399
BciT130I CCWGG 4 cut(s) 24, 39, 48, 105
BcoDI GTCTC 2 cut(s) 324, 465
BfaI CTAG 1 cut(s) 411
BfmI CTRYAG 1 cut(s) 133
BfoI RGCGCY 1 cut(s) 104
BfuAI ACCTGC 2 cut(s) 25, 399
Bme1390I CCNGG 4 cut(s) 24, 39, 48, 105
Bme18I GGWCC 2 cut(s) 124, 202
BmgT120I GGNCC 3 cut(s) 50, 124, 202
BmiI GGNNCC 4 cut(s) 102, 109, 126, 267
BmrFI CCNGG 4 cut(s) 24, 39, 48, 105
BmsI GCATC 3 cut(s) 150, 244, 309
BsaHI GRCGYC 2 cut(s) 101, 310
BsaJI CCNNGG 1 cut(s) 525
BsaWI WCCGGW 1 cut(s) 121
Bsc4I CCNNNNNNNGG 5 cut(s) 23, 80, 121, 188, 189
Bse3DI GCAATG 1 cut(s) 242
BseAI TCCGGA 1 cut(s) 121
BseBI CCWGG 4 cut(s) 24, 39, 48, 105
BseDI CCNNGG 1 cut(s) 525
BseGI GGATG 2 cut(s) 422, 536
BseLI CCNNNNNNNGG 5 cut(s) 23, 80, 121, 188, 189
BseMI GCAATG 1 cut(s) 242
BseMII CTCAG 1 cut(s) 392
BshFI GGCC 1 cut(s) 51
BshNI GGYRCC 1 cut(s) 100
BsiSI CCGG 1 cut(s) 122
BslI CCNNNNNNNGG 5 cut(s) 23, 80, 121, 188, 189
BsmAI GTCTC 2 cut(s) 324, 465
BsnI GGCC 1 cut(s) 51
Bsp13I TCCGGA 1 cut(s) 121
BspANI GGCC 1 cut(s) 51
BspCNI CTCAG 1 cut(s) 393
BspEI TCCGGA 1 cut(s) 121
BspLI GGNNCC 4 cut(s) 102, 109, 126, 267
BspMI ACCTGC 2 cut(s) 25, 399
BspQI GCTCTTC 1 cut(s) 400
BspT107I GGYRCC 1 cut(s) 100
BsrDI GCAATG 1 cut(s) 242
BssECI CCNNGG 1 cut(s) 525
BssNI GRCGYC 2 cut(s) 101, 310
BssSI CACGAG 1 cut(s) 321
Bst2BI CACGAG 1 cut(s) 321
Bst2UI CCWGG 4 cut(s) 24, 39, 48, 105
Bst4CI ACNGT 1 cut(s) 202
Bst6I CTCTTC 1 cut(s) 400
BstACI GRCGYC 2 cut(s) 101, 310
BstAPI GCANNNNNTGC 1 cut(s) 92
BstC8I GCNNGC 2 cut(s) 231, 396
BstDEI CTNAG 1 cut(s) 401
BstF5I GGATG 2 cut(s) 422, 536
BstH2I RGCGCY 1 cut(s) 104
BstHHI GCGC 1 cut(s) 103
BstMAI GTCTC 2 cut(s) 324, 465
BstMWI GCNNNNNNNGC 4 cut(s) 92, 107, 313, 373
BstNI CCWGG 4 cut(s) 24, 39, 48, 105
BstNSI RCATGY 2 cut(s) 95, 398
BstSCI CCNGG 4 cut(s) 22, 37, 46, 103
BstSFI CTRYAG 1 cut(s) 133
BsuRI GGCC 1 cut(s) 51
BtsCI GGATG 2 cut(s) 422, 536
BtsI GCAGTG 1 cut(s) 102
BtsIMutI CAGTG 2 cut(s) 102, 398
BveI ACCTGC 2 cut(s) 25, 399
Cac8I GCNNGC 2 cut(s) 231, 396
CaiI CAGNNNCTG 1 cut(s) 338
CfoI GCGC 1 cut(s) 103
Cfr13I GGNCC 3 cut(s) 50, 124, 202
CviAII CATG 4 cut(s) 92, 296, 377, 395
CviJI RGCY 6 cut(s) 51, 68, 110, 350, 367, 410
CviKI_1 RGCY 6 cut(s) 51, 68, 110, 350, 367, 410
DdeI CTNAG 1 cut(s) 401
DinI GGCGCC 1 cut(s) 102
Eam1104I CTCTTC 1 cut(s) 400
EarI CTCTTC 1 cut(s) 400
Eco47I GGWCC 2 cut(s) 124, 202
Eco57I CTGAAG 1 cut(s) 194
EcoO109I RGGNCCY 1 cut(s) 50
EcoRI GAATTC 2 cut(s) 42, 222
EcoRII CCWGG 4 cut(s) 22, 37, 46, 103
EgeI GGCGCC 1 cut(s) 102
EheI GGCGCC 1 cut(s) 102
FaeI CATG 4 cut(s) 95, 299, 380, 398
FalI AAGNNNNNCTT 2 cut(s) 356, 388
FatI CATG 4 cut(s) 91, 295, 376, 394
FokI GGATG 2 cut(s) 429, 523
FspBI CTAG 1 cut(s) 411
GlaI GCGC 1 cut(s) 102
HaeII RGCGCY 1 cut(s) 104
HaeIII GGCC 1 cut(s) 51
HapII CCGG 1 cut(s) 122
HhaI GCGC 1 cut(s) 103
Hin1I GRCGYC 2 cut(s) 101, 310
Hin1II CATG 4 cut(s) 95, 299, 380, 398
Hin6I GCGC 1 cut(s) 101
HinP1I GCGC 1 cut(s) 101
HinfI GANTC 2 cut(s) 335, 380
HpaII CCGG 1 cut(s) 122
HphI GGTGA 1 cut(s) 6
Hpy188I TCNGA 4 cut(s) 340, 363, 505, 529
Hpy188III TCNNGA 2 cut(s) 122, 384
Hpy99I CGWCG 2 cut(s) 312, 315
HpyAV CCTTC 1 cut(s) 461
HpyCH4III ACNGT 1 cut(s) 202
HpyCH4IV ACGT 1 cut(s) 310
HpyCH4V TGCA 9 cut(s) 20, 58, 95, 257, 284, 376, 394, 398, 440
HpyF10VI GCNNNNNNNGC 4 cut(s) 92, 107, 313, 373
HpyF3I CTNAG 1 cut(s) 401
HpySE526I ACGT 1 cut(s) 310
Hsp92I GRCGYC 2 cut(s) 101, 310
Hsp92II CATG 4 cut(s) 95, 299, 380, 398
HspAI GCGC 1 cut(s) 101
KasI GGCGCC 1 cut(s) 100
Kpn2I TCCGGA 1 cut(s) 121
LguI GCTCTTC 1 cut(s) 400
LmnI GCTCC 3 cut(s) 83, 107, 154
LweI GCATC 3 cut(s) 150, 244, 309
MaeI CTAG 1 cut(s) 411
MaeII ACGT 1 cut(s) 310
MboII GAAGA 3 cut(s) 200, 417, 513
MluCI AATT 4 cut(s) 42, 222, 475, 486
Mly113I GGCGCC 1 cut(s) 101
MnlI CCTC 6 cut(s) 22, 81, 183, 256, 407, 535
MroI TCCGGA 1 cut(s) 121
MseI TTAA 2 cut(s) 215, 435
MslI CAYNNNNRTG 1 cut(s) 393
MspI CCGG 1 cut(s) 122
MspR9I CCNGG 4 cut(s) 24, 39, 48, 105
MvaI CCWGG 4 cut(s) 24, 39, 48, 105
MwoI GCNNNNNNNGC 4 cut(s) 92, 107, 313, 373
NarI GGCGCC 1 cut(s) 101
NlaIII CATG 4 cut(s) 95, 299, 380, 398
NlaIV GGNNCC 4 cut(s) 102, 109, 126, 267
NspI RCATGY 2 cut(s) 95, 398
PaeI GCATGC 1 cut(s) 398
PaqCI CACCTGC 2 cut(s) 25, 399
PciSI GCTCTTC 1 cut(s) 400
PcsI WCGNNNNNNNCGW 1 cut(s) 319
PfeI GAWTC 2 cut(s) 335, 380
PflMI CCANNNNNTGG 1 cut(s) 80
PfoI TCCNGGA 1 cut(s) 37
PluTI GGCGCC 1 cut(s) 104
Psp6I CCWGG 4 cut(s) 22, 37, 46, 103
PspGI CCWGG 4 cut(s) 22, 37, 46, 103
PspN4I GGNNCC 4 cut(s) 102, 109, 126, 267
PspPI GGNCC 3 cut(s) 50, 124, 202
PstNI CAGNNNCTG 1 cut(s) 338
RseI CAYNNNNRTG 1 cut(s) 393
SapI GCTCTTC 1 cut(s) 400
SaqAI TTAA 2 cut(s) 215, 435
Sau96I GGNCC 3 cut(s) 50, 124, 202
ScrFI CCNGG 4 cut(s) 24, 39, 48, 105
SetI ASST 7 cut(s) 19, 25, 271, 313, 352, 393, 412
SfaNI GCATC 3 cut(s) 150, 244, 309
SfcI CTRYAG 1 cut(s) 133
SfoI GGCGCC 1 cut(s) 102
SinI GGWCC 2 cut(s) 124, 202
SmiMI CAYNNNNRTG 1 cut(s) 393
SphI GCATGC 1 cut(s) 398
Sse9I AATT 4 cut(s) 42, 222, 475, 486
SspDI GGCGCC 1 cut(s) 100
SspMI CTAG 1 cut(s) 411
StyD4I CCNGG 4 cut(s) 22, 37, 46, 103
TaaI ACNGT 1 cut(s) 202
TaiI ACGT 1 cut(s) 313
TaqI TCGA 1 cut(s) 385
TasI AATT 4 cut(s) 42, 222, 475, 486
TfiI GAWTC 2 cut(s) 335, 380
Tru1I TTAA 2 cut(s) 215, 435
Tru9I TTAA 2 cut(s) 215, 435
TscAI CASTG 2 cut(s) 102, 405
TspDTI ATGAA 2 cut(s) 393, 471
TspRI CASTG 2 cut(s) 102, 405
Van91I CCANNNNNTGG 1 cut(s) 80
VpaK11BI GGWCC 2 cut(s) 124, 202
XapI RAATTY 2 cut(s) 42, 222
XceI RCATGY 2 cut(s) 95, 398
XspI CTAG 1 cut(s) 411
ZraI GACGTC 1 cut(s) 311
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.